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TRAPPC2L trafficking protein particle complex 2 like [ Homo sapiens (human) ]

Gene ID: 51693, updated on 1-Aug-2020

Summary

Official Symbol
TRAPPC2Lprovided by HGNC
Official Full Name
trafficking protein particle complex 2 likeprovided by HGNC
Primary source
HGNC:HGNC:30887
See related
Ensembl:ENSG00000167515 MIM:610970
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PERRB; HSPC176
Summary
This gene encodes a protein that interacts with the tethering factor trafficking protein particle (TRAPP complex). TRAPP complexes mediate the contact between vescicles and target membranes, and thus, are involved in vescicle-mediated transport of proteins and lipids. The encoded protein is related to the X-linked trafficking protein particle complex 2. A related pseudogene is located on the X chromosome. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jan 2016]
Expression
Ubiquitous expression in adrenal (RPKM 16.3), testis (RPKM 13.9) and 25 other tissues See more
Orthologs

Genomic context

See TRAPPC2L in Genome Data Viewer
Location:
16q24.3
Exon count:
7
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 16 NC_000016.10 (88856220..88862686)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (88923465..88929086)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene proline-rich proteoglycan 2-like Neighboring gene adenine phosphoribosyltransferase Neighboring gene galactosamine (N-acetyl)-6-sulfatase Neighboring gene uncharacterized LOC107983950 Neighboring gene PABPN1 like, cytoplasmic Neighboring gene uncharacterized LOC101927793 Neighboring gene CBFA2/RUNX1 partner transcriptional co-repressor 3 Neighboring gene uncharacterized LOC102724632

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ44827, MGC111156

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
COPII vesicle coating TAS
Traceable Author Statement
more info
 
ER to Golgi vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
TRAPP complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
TRAPP complex IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
trafficking protein particle complex subunit 2-like protein
Names
hematopoietic stem/progenitor cells 176

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001318524.2NP_001305453.1  trafficking protein particle complex subunit 2-like protein isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    BC011369, BC017440, BX419849, DA209193
    Consensus CDS
    CCDS82027.1
    UniProtKB/Swiss-Prot
    Q9UL33
    UniProtKB/TrEMBL
    A0A0B4J294
    Related
    ENSP00000457728.1, ENST00000568583.5
    Conserved Domains (1) summary
    pfam04628
    Location:7144
    Sedlin_N; Sedlin, N-terminal conserved region
  2. NM_001318525.2NP_001305454.1  trafficking protein particle complex subunit 2-like protein isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. It encodes isoform 3, which is shorter than isoform 1.
    Source sequence(s)
    BC011369, BC017440, DA209193
    UniProtKB/Swiss-Prot
    Q9UL33
    Conserved Domains (1) summary
    cd14854
    Location:3135
    TRAPPC2L; Trafficking protein particle complex subunit 2-like
  3. NM_001318526.2NP_001305455.1  trafficking protein particle complex subunit 2-like protein isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR, contains multiple coding region differences and uses an alternate start codon, compared to variant 1. It encodes isoform 4, which is shorter and has a distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    BC011369, BC017440, BG283878, BI754306, DA209193, DA833474
    Consensus CDS
    CCDS82029.1
    UniProtKB/Swiss-Prot
    Q9UL33
    UniProtKB/TrEMBL
    H3BQQ8
    Related
    ENSP00000455892.1, ENST00000561840.1
    Conserved Domains (1) summary
    cl21566
    Location:54127
    Sedlin_N; Sedlin, N-terminal conserved region
  4. NM_001318527.2NP_001305456.1  trafficking protein particle complex subunit 2-like protein isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, lacks a portion of the 5' coding region and uses an alternate start codon, compared to variant 1. It encodes isoform 5, which is shorter and has a distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    AK307253, AK310805, BC011369, BC017440, BC105809, BX340702, BX419849
    UniProtKB/Swiss-Prot
    Q9UL33
    Conserved Domains (1) summary
    cl21566
    Location:33111
    Sedlin_N; Sedlin, N-terminal conserved region
  5. NM_001318528.2NP_001305457.1  trafficking protein particle complex subunit 2-like protein isoform 6

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR, lacks a portion of the 5' coding region, uses a downstream start codon and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. It encodes isoform 6, which is shorter than isoform 1.
    Source sequence(s)
    AK310805, BC011369, BC017440, DA295904
    UniProtKB/Swiss-Prot
    Q9UL33
    Conserved Domains (1) summary
    pfam04628
    Location:1108
    Sedlin_N; Sedlin, N-terminal conserved region
  6. NM_001318529.2NP_001305458.1  trafficking protein particle complex subunit 2-like protein isoform 7

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR and 5' coding region, uses an alternate start codon and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. It encodes isoform 7, which is shorter and has a distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    BC011369, BC017440, BX384775, DA209193
    UniProtKB/Swiss-Prot
    Q9UL33
    Conserved Domains (1) summary
    cl21566
    Location:33105
    Sedlin_N; Sedlin, N-terminal conserved region
  7. NM_001318530.2NP_001305459.1  trafficking protein particle complex subunit 2-like protein isoform 8

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) differs in the 5' UTR, lacks a portion of the 5' coding region, uses a downstream start codon and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. It encodes isoform 8, which is shorter than isoform 1.
    Source sequence(s)
    BC011369, BC017440, DA833474
    Consensus CDS
    CCDS82028.1
    UniProtKB/Swiss-Prot
    Q9UL33
    UniProtKB/TrEMBL
    H3BUK6
    Related
    ENSP00000457684.1, ENST00000567895.5
    Conserved Domains (1) summary
    cd14854
    Location:2105
    TRAPPC2L; Trafficking protein particle complex subunit 2-like
  8. NM_001318532.2NP_001305461.1  trafficking protein particle complex subunit 2-like protein isoform 9

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) differs in the 5' UTR and 5' coding region, uses an alternate start codon and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. It encodes isoform 9, which is shorter and has a distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    AK310805, BC011369, BC017440, DA209193
    UniProtKB/Swiss-Prot
    Q9UL33
    Conserved Domains (1) summary
    cl21566
    Location:33104
    Sedlin_N; Sedlin, N-terminal conserved region
  9. NM_016209.5NP_057293.1  trafficking protein particle complex subunit 2-like protein isoform 2

    See identical proteins and their annotated locations for NP_057293.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    BC011369, BC017440, BC105809
    Consensus CDS
    CCDS10971.1
    UniProtKB/Swiss-Prot
    Q9UL33
    Related
    ENSP00000301021.3, ENST00000301021.7
    Conserved Domains (1) summary
    pfam04628
    Location:7138
    Sedlin_N; Sedlin, N-terminal conserved region

RNA

  1. NR_134670.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (10) contains multiple differences compared to variant 1. This variant is represented as non-coding because the use of the 5'-most translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC011369, BC017440, BC105809, BI754306
  2. NR_134671.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (11) contains multiple differences compared to variant 1. This variant is represented as non-coding because the use of the 5'-most translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK307253, AK310805, BC011369, BC017440, BM974507

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20200522

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p13 Primary Assembly

    Range
    88856220..88862686
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017023270.1XP_016878759.1  trafficking protein particle complex subunit 2-like protein isoform X1

    UniProtKB/TrEMBL
    H3BQQ8
    Conserved Domains (1) summary
    cl21566
    Location:54127
    Sedlin_N; Sedlin, N-terminal conserved region
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